Back to Multiple platform build/check report for BioC 3.11
ABCDEFGHIJK[L]MNOPQRSTUVWXYZ

CHECK report for LinkHD on tokay2

This page was generated on 2020-10-17 11:56:57 -0400 (Sat, 17 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE LinkHD PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 940/1905HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
LinkHD 1.2.0
"Laura M Zingaretti"
Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020)
URL: https://git.bioconductor.org/packages/LinkHD
Branch: RELEASE_3_11
Last Commit: 6f986b9
Last Changed Date: 2020-04-27 15:31:39 -0400 (Mon, 27 Apr 2020)
malbec2 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK [ OK ] OK UNNEEDED, same version exists in internal repository
machv2 macOS 10.14.6 Mojave / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: LinkHD
Version: 1.2.0
Command: C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:LinkHD.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings LinkHD_1.2.0.tar.gz
StartedAt: 2020-10-17 05:31:13 -0400 (Sat, 17 Oct 2020)
EndedAt: 2020-10-17 05:36:10 -0400 (Sat, 17 Oct 2020)
EllapsedTime: 297.5 seconds
RetCode: 0
Status:  OK  
CheckDir: LinkHD.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:LinkHD.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings LinkHD_1.2.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.11-bioc/meat/LinkHD.Rcheck'
* using R version 4.0.3 (2020-10-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'LinkHD/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'LinkHD' version '1.2.0'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'LinkHD' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* loading checks for arch 'i386'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
* loading checks for arch 'x64'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

LinkHD.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/LinkHD_1.2.0.tar.gz && rm -rf LinkHD.buildbin-libdir && mkdir LinkHD.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=LinkHD.buildbin-libdir LinkHD_1.2.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL LinkHD_1.2.0.zip && rm LinkHD_1.2.0.tar.gz LinkHD_1.2.0.zip
###
##############################################################################
##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100  871k  100  871k    0     0  12.1M      0 --:--:-- --:--:-- --:--:-- 13.5M

install for i386

* installing *source* package 'LinkHD' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'LinkHD'
    finding HTML links ... done
    Compromise_matrix-methods               html  
    DataProcessing                          html  
    DistStatis-Class                        html  
    DistStatis-CompromisePlot               html  
    DistStatis-CorrelationPlot              html  
    DistStatis-GlobalPlot                   html  
    Euclid_Im-methods                       html  
    Inertia_RV-methods                      html  
    Inertia_comp-methods                    html  
    LinkData-LinkData                       html  
    OTU2Taxa-OTU2Taxa                       html  
    RQO-methods                             html  
    Read_Data                               html  
    Ruminotypes                             html  
    Taraoceans                              html  
    Trajectories-methods                    html  
    VarSelection-Class                      html  
    VarSelection                            html  
    VarTable-methods                        html  
    Var_coordinates-methods                 html  
    Variables-methods                       html  
    compromise_coords-methods               html  
    correl-methods                          html  
    dAB-dAB                                 html  
    sign_values-methods                     html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'LinkHD' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'LinkHD' as LinkHD_1.2.0.zip
* DONE (LinkHD)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'LinkHD' successfully unpacked and MD5 sums checked

Tests output


Example timings

LinkHD.Rcheck/examples_i386/LinkHD-Ex.timings

nameusersystemelapsed
Compromise_matrix-methods0.800.190.99
DataProcessing0.020.000.01
DistStatis-Class000
DistStatis-CompromisePlot1.140.001.14
DistStatis-CorrelationPlot1.550.011.56
DistStatis-GlobalPlot0.930.020.93
Euclid_Im-methods0.450.050.50
Inertia_RV-methods0.520.000.52
Inertia_comp-methods0.650.000.67
LinkData-LinkData0.410.030.44
OTU2Taxa-OTU2Taxa3.150.003.16
RQO-methods0.390.040.43
Read_Data000
Ruminotypes000
Taraoceans000
Trajectories-methods0.830.110.94
VarSelection-Class000
VarSelection1.880.001.87
VarTable-methods2.860.002.86
Var_coordinates-methods1.930.031.97
Variables-methods2.210.002.20
compromise_coords-methods0.480.000.49
correl-methods0.390.000.39
dAB-dAB0.800.030.83
sign_values-methods2.320.002.33

LinkHD.Rcheck/examples_x64/LinkHD-Ex.timings

nameusersystemelapsed
Compromise_matrix-methods1.360.031.39
DataProcessing0.010.000.02
DistStatis-Class000
DistStatis-CompromisePlot0.810.040.85
DistStatis-CorrelationPlot0.740.000.74
DistStatis-GlobalPlot0.820.050.87
Euclid_Im-methods0.460.020.47
Inertia_RV-methods0.530.010.55
Inertia_comp-methods0.750.020.77
LinkData-LinkData0.720.010.73
OTU2Taxa-OTU2Taxa4.280.024.30
RQO-methods0.470.000.47
Read_Data000
Ruminotypes000
Taraoceans000
Trajectories-methods1.810.111.92
VarSelection-Class000
VarSelection2.830.112.93
VarTable-methods2.170.012.19
Var_coordinates-methods2.030.022.05
Variables-methods2.110.002.11
compromise_coords-methods0.420.010.44
correl-methods0.440.020.45
dAB-dAB1.050.001.05
sign_values-methods2.220.002.21